BDgene

SNP Report

Basic Info
Name rs1538977 dbSNP Ensembl
Location chr1:231761557 - 231761557(1)
Variant Alleles A/G
Ancestral Allele A
Minor Allele G
Minor Allele Frequence 0.191094
Functional Annotation intron_variant; NMD_transcript_variant.
Consequence to Transcript intron_variant(ENST00000295051, ENST00000366632, ENST00000366633, ENST00000366636, ENST00000366637, ENST00000422590, ENST00000439617, ENST00000535944, ENST00000535983, ENST00000537876, ENST00000539444, ENST00000602281, ENST00000602567, ENST00000602634, ENST00000602700, ENST00000602713, ENST00000602822, ENST00000602873, ENST00000602885, ENST00000602956, ENST00000602962, ENST00000620189, ENST00000622252, ENST00000628350); NMD_transcript_variant(ENST00000295051, ENST00000366632, ENST00000422590, ENST00000535944, ENST00000602567, ENST00000602634, ENST00000602700, ENST00000602713, ENST00000602822, ENST00000602885, ENST00000602956, ENST00000602962)
No. of Studies 4 (Positive: 0; Negative: 4; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? NO

SNP related studies (count: 4)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Xiao, Y.,2011 A/G A Allelic permutated P-value = 0.999, genotypic permutated P-...... Allelic permutated P-value = 0.999, genotypic permutated P-value = 0.702 More... No significant association was observed in BD. No significant association was observed in BD. Negative
Palo, O. M., 2007 A/G P-value = 0.718 in all patients, P-value = 0.058 in males, P...... P-value = 0.718 in all patients, P-value = 0.058 in males, P-value = 0.862 in females, with bipolar spectrum disorder More... Negative
Yosifova, A.,2009 A/G Allelic association: P-value = 0.27 Allelic association: P-value = 0.27 No significant association was observed No significant association was observed Negative
Thomson, P. A.,2005(a) Single-Marker Analysis: allele frequency, for BP, P-value = ...... Single-Marker Analysis: allele frequency, for BP, P-value = 0.49 More... No significant association was observed. No significant association was observed. Negative

SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
TSNAX translin-associated factor X 1q42.2 4(3/1/0)
DISC1 disrupted in schizophrenia 1 1q42.1 18(10/7/1)

SNPs in LD with rs1538977 (count: 5) View in gBrowse (chr1:231761169..231771101 )
The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r2<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 5)


Overlap with SZ from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Thomson, P. A.,2005(a) Single-Marker Analysis:allele frequency, for SZ, P-value = 0.98 No significant association was observed. Negative

Overlap with MDD from cross-disorder studies (count: 0)